Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
KMT2A

Cell type

Cell type Class
Others
Cell type
Acute lymphoid leukemia
NA
NA

Attributes by original data submitter

Sample

source_name
Leukemia cell line (SEM)
cell type
Bone marrow aspirate from a 15-year old MLL-AF4 ALL patient
chip antibody
Bethyl A300-086A
sirna
RUNX1 siRNA (Dharmacon J-003926-05)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were washed with PBS and fixed in either 1% FA for 10 minutes (histones) or 2mM DSG for 30 minutes and 1% FA for 30 minutes (EZH2). For reference normalisation 10% S2 cells were spiked in prior to sonication. Cells were sonicated to give fragments of 100-300bp followed by IP. DNA libraries were made using the NEBnext ultra DNA library preparation kit for Illumina (Cat no. E7370).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
21162014
Reads aligned (%)
92.9
Duplicates removed (%)
2.1
Number of peaks
10750 (qval < 1E-05)

hg19

Number of total reads
21162014
Reads aligned (%)
92.2
Duplicates removed (%)
2.2
Number of peaks
10610 (qval < 1E-05)

Base call quality data from DBCLS SRA